genome.fa.s12.2.7.7.80.10.50.1000.295.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: A12
Parameters: 2 7 7 80 10 50 1000
Length:  103038859

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   

This is table  295  of  320  ( 38372 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94093551--94093658	54	2.0	54	98	0	207	27	28	3	39	1.74
94096533--94096681	52	2.9	49	78	14	149	29	25	18	26	1.98
94097288--94097357	35	2.0	35	100	0	140	31	25	5	37	1.80
94100768--94100849	26	3.2	26	92	0	137	29	8	26	35	1.86
94107580--94107645	33	2.0	33	96	0	123	28	12	12	46	1.77
94111639--94111679	18	2.3	18	88	12	59	70	4	14	9	1.30
94120767--94120791	5	5.0	5	100	0	50	20	0	0	80	0.72
94121205--94121255	18	2.8	18	80	11	52	3	13	0	82	0.81
94121210--94121256	24	1.9	25	86	4	69	4	10	0	85	0.74
94132040--94132074	12	2.8	12	86	4	52	68	2	5	22	1.24
94133650--94133789	52	2.7	52	79	7	158	25	16	28	30	1.97
94136591--94136766	46	3.8	46	75	15	173	21	21	28	28	1.99
94136588--94136759	93	1.8	93	92	0	290	22	22	28	27	1.99
94138741--94138786	24	2.0	23	82	4	56	41	13	19	26	1.88
94144178--94144443	46	5.7	46	74	18	246	21	20	29	28	1.98
94144221--94144389	47	3.6	47	76	16	206	21	21	28	27	1.99
94144172--94144436	93	2.8	93	97	0	485	21	21	29	27	1.98
94151634--94151659	5	5.2	5	100	0	52	80	0	0	19	0.71
94166022--94166093	29	2.5	29	97	0	135	52	13	9	23	1.70
94167114--94167140	11	2.5	11	100	0	54	29	11	25	33	1.91
94172312--94172355	23	2.0	22	86	4	61	43	0	0	56	0.99
94172356--94172406	25	2.2	23	83	13	61	47	0	5	47	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94173655--94173698	19	2.3	19	84	0	52	45	0	0	54	0.99
94173672--94173712	19	2.2	18	87	12	57	48	2	0	48	1.14
94173665--94173732	28	2.4	27	80	7	82	51	2	0	45	1.16
94177931--94177960	4	7.5	4	100	0	60	50	26	0	23	1.50
94188060--94188093	18	1.9	17	88	5	50	20	5	0	73	1.04
94196675--94196726	22	2.3	23	74	6	54	50	0	0	50	1.00
94200360--94200437	15	5.2	15	67	11	61	44	7	21	25	1.79
94200356--94200437	30	2.7	30	94	0	137	46	7	21	24	1.77
94205024--94205131	15	7.2	15	67	12	78	44	7	22	25	1.79
94205018--94205141	30	4.1	30	93	1	203	43	6	24	25	1.78
94206121--94206164	3	15.0	3	90	4	72	70	0	0	29	0.88
94208974--94209154	46	3.9	46	90	1	256	22	23	13	40	1.89
94211154--94211196	11	3.7	11	82	11	50	60	2	0	37	1.10
94211159--94211237	30	2.6	30	75	13	72	54	5	0	40	1.22
94216531--94216656	47	2.7	46	81	4	146	31	25	14	28	1.95
94216679--94216863	31	6.0	31	87	5	257	27	26	18	28	1.98
94216841--94216960	50	2.4	51	91	4	190	28	22	12	36	1.91
94219428--94219495	15	4.4	15	74	18	59	45	0	1	52	1.09
94219514--94219550	16	2.3	16	86	13	58	40	0	0	59	0.97
94225627--94225671	17	2.6	18	89	10	67	33	0	2	64	1.06
94227001--94227038	20	1.9	20	88	0	58	47	10	2	39	1.52
94228318--94228436	60	2.0	60	90	3	186	52	13	0	33	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94230357--94230412	27	2.1	27	100	0	112	35	10	10	42	1.74
94244419--94244464	25	1.9	25	82	8	60	28	17	0	54	1.43
94244726--94245159	46	10.0	46	83	12	540	22	24	15	37	1.93
94244908--94245145	38	5.8	38	82	14	305	23	25	16	34	1.95
94244859--94245159	84	3.6	84	96	0	557	24	25	15	34	1.95
94244770--94245159	168	2.3	172	91	3	635	23	25	15	36	1.94
94247281--94247361	24	3.2	24	68	14	63	56	2	1	39	1.20
94248154--94248619	206	2.3	206	94	0	817	30	18	22	27	1.98
94248707--94248803	45	2.2	46	84	5	135	29	14	29	25	1.95
94248988--94249033	15	3.0	15	83	3	56	50	36	6	6	1.54
94249115--94249172	13	4.8	13	75	16	61	37	50	0	12	1.40
94249128--94249183	22	2.5	22	85	5	78	35	50	0	14	1.43
94249545--94249586	19	2.3	18	87	4	57	26	2	2	69	1.13
94249571--94249652	33	2.3	38	83	12	102	34	14	0	51	1.43
94249903--94249959	25	2.3	23	80	14	62	17	5	14	63	1.48
94252792--94252854	18	3.0	23	74	21	59	52	0	1	46	1.10
94252821--94252855	18	1.9	18	100	0	70	60	0	0	40	0.97
94255366--94255452	26	3.2	26	71	9	84	29	1	9	59	1.36
94255751--94255807	15	3.7	15	80	2	60	28	8	1	61	1.36
94265738--94265783	24	1.9	24	81	0	56	52	4	0	43	1.21
94266854--94267073	41	5.4	41	91	2	327	34	22	21	20	1.97
94267471--94267522	25	2.1	25	96	0	95	28	7	21	42	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94267815--94267856	22	1.9	22	90	0	66	19	7	33	40	1.78
94267889--94267918	15	2.0	15	93	0	51	56	0	10	33	1.32
94269920--94270135	43	5.0	44	83	6	287	26	20	24	28	1.99
94269920--94270135	87	2.5	87	95	0	387	26	20	24	28	1.99
94271031--94271076	25	1.9	23	86	8	65	63	6	0	30	1.20
94271180--94271208	12	2.5	12	94	5	51	58	6	6	27	1.50
94271294--94271320	10	2.7	10	100	0	54	66	0	0	33	0.92
94272819--94272932	42	2.7	42	84	2	131	15	22	15	45	1.84
94272855--94272949	21	4.7	21	85	3	124	13	23	20	43	1.87
94275016--94275044	13	2.1	14	93	6	51	51	0	3	44	1.18
94276034--94276075	19	2.2	19	83	8	50	33	4	2	59	1.31
94278599--94278656	30	1.9	29	82	6	71	31	1	1	65	1.13
94279169--94279240	24	3.0	25	95	4	130	73	19	2	4	1.12
94290056--94290224	71	2.4	70	87	2	232	26	14	24	34	1.94
94290228--94290418	72	2.6	73	85	4	244	25	15	25	33	1.95
94290049--94290576	199	2.7	194	87	2	709	25	15	23	34	1.95
94290517--94290721	89	2.3	89	87	5	283	26	17	20	34	1.95
94290602--94290916	140	2.2	142	93	1	526	26	16	21	35	1.94
94290931--94291108	72	2.4	73	91	5	277	32	15	17	34	1.91
94291062--94291157	49	2.0	49	97	0	183	30	16	20	32	1.95
94290990--94291229	121	2.0	121	94	0	426	31	16	18	33	1.93
94291111--94291462	72	4.7	75	89	5	482	32	16	17	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94291111--94291670	168	3.6	151	79	11	510	31	17	17	33	1.94
94291442--94291468	14	1.9	14	100	0	54	14	14	7	62	1.51
94291443--94291476	14	2.4	14	90	0	50	17	20	5	55	1.62
94291365--94291553	91	2.1	91	89	2	290	25	20	17	36	1.94
94291456--94292047	88	7.2	77	72	16	386	28	16	18	36	1.93
94291456--94291836	77	4.7	77	78	9	305	28	17	18	35	1.93
94291818--94291879	30	2.1	30	87	6	90	20	9	27	41	1.84
94291278--94292047	253	3.1	246	83	6	902	28	16	18	36	1.93
94292692--94292759	18	3.9	18	75	14	79	73	19	2	4	1.13
94292692--94292759	17	3.9	17	74	11	75	73	19	2	4	1.13
94294506--94294544	12	3.2	12	92	7	62	74	10	0	15	1.07
94297641--94297722	37	2.2	37	78	8	87	42	2	0	54	1.13
94297657--94297707	18	2.6	19	82	17	61	31	3	0	64	1.11
94297657--94297719	17	3.4	18	75	23	60	34	3	0	61	1.12
94297825--94297872	21	2.3	21	81	0	60	39	14	14	31	1.86
94307053--94307101	23	2.2	23	88	3	73	48	2	0	48	1.12
94308431--94308463	12	2.8	12	95	0	57	60	0	0	39	0.97
94309934--94309973	20	2.0	20	85	9	55	67	0	25	7	1.16
94311075--94311132	17	3.1	19	79	20	77	50	6	1	41	1.39
94311077--94311133	20	3.0	20	78	21	77	47	7	1	43	1.40
94311083--94311178	17	5.6	17	67	22	58	53	4	3	39	1.36
94315556--94315605	20	2.5	20	83	3	66	56	2	0	42	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94316612--94316641	12	2.5	12	94	0	51	76	3	0	20	0.92
94326578--94326706	67	1.9	67	100	0	258	64	6	8	20	1.43
94326869--94326919	26	1.9	27	92	4	86	58	9	5	25	1.52
94326869--94326933	27	2.5	26	82	12	71	56	7	7	27	1.55
94330920--94331053	26	5.2	26	92	0	223	32	5	24	37	1.80
94332650--94332728	27	2.9	28	83	10	101	18	26	21	32	1.97
94336094--94336250	39	4.1	39	92	0	262	21	23	29	25	1.99
94337632--94337772	53	2.7	53	89	2	203	25	17	27	29	1.97
94341202--94341308	29	3.8	28	77	3	124	17	14	35	31	1.91
94345158--94345193	3	12.0	3	100	0	72	66	0	0	33	0.92

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320